Phylogenetic Analysis of Hepatitis C Virus Infections in a Large Belgian Cohort Using Next-Generation Sequencing of Full-Length Genomes
| Autor(a) principal: | |
|---|---|
| Data de Publicação: | 2023 |
| Outros Autores: | , , , , , , , , , , , , , , , , , |
| Tipo de documento: | Artigo |
| Idioma: | eng |
| Título da fonte: | Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) |
| Texto Completo: | http://hdl.handle.net/10362/164969 |
Resumo: | Funding Information: This research and Kasper Thorhauge Christensen was funded by grants from the Fonds Wetenschappelijk Onderzoek Vlaanderen (FWO) (G069214, G0B2317N and 1S38819N). Lize Cuypers acknowledges FWO travel grant for a research visit at the University of Oxford (V431117N). Core funding to the Wellcome Centre for Human Genetics was provided by the Wellcome Trust (award 203141/Z/16/Z). The authors acknowledge the STOP-HCV consortium that was funded by a grant from the Medical Research Council, United Kingdom (MR/K01532X/1). Publisher Copyright: © 2023 by the authors. |
| id |
RCAP_a7190e0a0958f4b1d5122de5f52c85c8 |
|---|---|
| oai_identifier_str |
oai:run.unl.pt:10362/164969 |
| network_acronym_str |
RCAP |
| network_name_str |
Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) |
| repository_id_str |
7160 |
| spelling |
Phylogenetic Analysis of Hepatitis C Virus Infections in a Large Belgian Cohort Using Next-Generation Sequencing of Full-Length Genomesfull-genome sequencinghepatitis chuman immunodeficiency virusmen who have sex with mennext-generation sequencingpeople who inject drugsphylogenetic analysisQR355 VirologyQR MicrobiologyRA0421 Public health. Hygiene. Preventive MedicineInfectious DiseasesVirologyEpidemiologySDG 3 - Good Health and Well-beingSDG 9 - Industry, Innovation, and InfrastructureFunding Information: This research and Kasper Thorhauge Christensen was funded by grants from the Fonds Wetenschappelijk Onderzoek Vlaanderen (FWO) (G069214, G0B2317N and 1S38819N). Lize Cuypers acknowledges FWO travel grant for a research visit at the University of Oxford (V431117N). Core funding to the Wellcome Centre for Human Genetics was provided by the Wellcome Trust (award 203141/Z/16/Z). The authors acknowledge the STOP-HCV consortium that was funded by a grant from the Medical Research Council, United Kingdom (MR/K01532X/1). Publisher Copyright: © 2023 by the authors.The hepatitis C virus (HCV) epidemic in Western countries is primarily perpetuated by the sub-populations of men who have sex with men (MSM) and people who inject drugs (PWID). Understanding the dynamics of transmission in these communities is crucial for removing the remaining hurdles towards HCV elimination. We sequenced 269 annotated HCV plasma samples using probe enrichment and next-generation sequencing, obtaining 224 open reading frames of HCV (OR497849-OR498072). Maximum likelihood phylogenies were generated on the four most prevalent subtypes in this study (HCV1a, 1b, 3a, 4d) with a subsequent transmission cluster analysis. The highest rate of clustering was observed for HCV4d samples (13/17 (76.47%)). The second highest rate of clustering was observed in HCV1a samples (42/78 (53.85%)) with significant association with HIV-positive MSM. HCV1b and HCV3a had very low rates of clustering (2/83 (2.41%) and (0/29)). The spread of the prevalent subtype HCV1b appears to have been largely curtailed, and we demonstrate the onwards transmission of HCV1a and HCV4d in the HIV-positive MSM population across municipal borders. More systematic data collection and sequencing is needed to allow a better understanding of the HCV transmission among the community of PWID and overcome the remaining barriers for HCV elimination in Belgium.Instituto de Higiene e Medicina Tropical (IHMT)Global Health and Tropical Medicine (GHTM)TB, HIV and opportunistic diseases and pathogens (THOP)RUNChristensen, Kasper T.Pierard, FlorianBonsall, DavidBowden, RoryBarnes, EleanorFlorence, EricAnsari, M. AzimNguyen, Dungde Cesare, MariateresaNevens, FrederikRobaeys, GeertSchrooten, YoeriBusschots, DanaSimmonds, PeterVandamme, Anne MiekeVan Wijngaerden, EricDierckx, TimCuypers, LizeVan Laethem, Kristel2024-03-14T23:58:34Z2023-122023-12-01T00:00:00Zinfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articleapplication/pdfhttp://hdl.handle.net/10362/164969eng1999-4915PURE: 82961597https://doi.org/10.3390/v15122391info:eu-repo/semantics/openAccessreponame:Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)instname:Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informaçãoinstacron:RCAAP2024-03-18T01:48:28Zoai:run.unl.pt:10362/164969Portal AgregadorONGhttps://www.rcaap.pt/oai/openaireopendoar:71602024-03-20T04:02:06.160592Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) - Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informaçãofalse |
| dc.title.none.fl_str_mv |
Phylogenetic Analysis of Hepatitis C Virus Infections in a Large Belgian Cohort Using Next-Generation Sequencing of Full-Length Genomes |
| title |
Phylogenetic Analysis of Hepatitis C Virus Infections in a Large Belgian Cohort Using Next-Generation Sequencing of Full-Length Genomes |
| spellingShingle |
Phylogenetic Analysis of Hepatitis C Virus Infections in a Large Belgian Cohort Using Next-Generation Sequencing of Full-Length Genomes Christensen, Kasper T. full-genome sequencing hepatitis c human immunodeficiency virus men who have sex with men next-generation sequencing people who inject drugs phylogenetic analysis QR355 Virology QR Microbiology RA0421 Public health. Hygiene. Preventive Medicine Infectious Diseases Virology Epidemiology SDG 3 - Good Health and Well-being SDG 9 - Industry, Innovation, and Infrastructure |
| title_short |
Phylogenetic Analysis of Hepatitis C Virus Infections in a Large Belgian Cohort Using Next-Generation Sequencing of Full-Length Genomes |
| title_full |
Phylogenetic Analysis of Hepatitis C Virus Infections in a Large Belgian Cohort Using Next-Generation Sequencing of Full-Length Genomes |
| title_fullStr |
Phylogenetic Analysis of Hepatitis C Virus Infections in a Large Belgian Cohort Using Next-Generation Sequencing of Full-Length Genomes |
| title_full_unstemmed |
Phylogenetic Analysis of Hepatitis C Virus Infections in a Large Belgian Cohort Using Next-Generation Sequencing of Full-Length Genomes |
| title_sort |
Phylogenetic Analysis of Hepatitis C Virus Infections in a Large Belgian Cohort Using Next-Generation Sequencing of Full-Length Genomes |
| author |
Christensen, Kasper T. |
| author_facet |
Christensen, Kasper T. Pierard, Florian Bonsall, David Bowden, Rory Barnes, Eleanor Florence, Eric Ansari, M. Azim Nguyen, Dung de Cesare, Mariateresa Nevens, Frederik Robaeys, Geert Schrooten, Yoeri Busschots, Dana Simmonds, Peter Vandamme, Anne Mieke Van Wijngaerden, Eric Dierckx, Tim Cuypers, Lize Van Laethem, Kristel |
| author_role |
author |
| author2 |
Pierard, Florian Bonsall, David Bowden, Rory Barnes, Eleanor Florence, Eric Ansari, M. Azim Nguyen, Dung de Cesare, Mariateresa Nevens, Frederik Robaeys, Geert Schrooten, Yoeri Busschots, Dana Simmonds, Peter Vandamme, Anne Mieke Van Wijngaerden, Eric Dierckx, Tim Cuypers, Lize Van Laethem, Kristel |
| author2_role |
author author author author author author author author author author author author author author author author author author |
| dc.contributor.none.fl_str_mv |
Instituto de Higiene e Medicina Tropical (IHMT) Global Health and Tropical Medicine (GHTM) TB, HIV and opportunistic diseases and pathogens (THOP) RUN |
| dc.contributor.author.fl_str_mv |
Christensen, Kasper T. Pierard, Florian Bonsall, David Bowden, Rory Barnes, Eleanor Florence, Eric Ansari, M. Azim Nguyen, Dung de Cesare, Mariateresa Nevens, Frederik Robaeys, Geert Schrooten, Yoeri Busschots, Dana Simmonds, Peter Vandamme, Anne Mieke Van Wijngaerden, Eric Dierckx, Tim Cuypers, Lize Van Laethem, Kristel |
| dc.subject.por.fl_str_mv |
full-genome sequencing hepatitis c human immunodeficiency virus men who have sex with men next-generation sequencing people who inject drugs phylogenetic analysis QR355 Virology QR Microbiology RA0421 Public health. Hygiene. Preventive Medicine Infectious Diseases Virology Epidemiology SDG 3 - Good Health and Well-being SDG 9 - Industry, Innovation, and Infrastructure |
| topic |
full-genome sequencing hepatitis c human immunodeficiency virus men who have sex with men next-generation sequencing people who inject drugs phylogenetic analysis QR355 Virology QR Microbiology RA0421 Public health. Hygiene. Preventive Medicine Infectious Diseases Virology Epidemiology SDG 3 - Good Health and Well-being SDG 9 - Industry, Innovation, and Infrastructure |
| description |
Funding Information: This research and Kasper Thorhauge Christensen was funded by grants from the Fonds Wetenschappelijk Onderzoek Vlaanderen (FWO) (G069214, G0B2317N and 1S38819N). Lize Cuypers acknowledges FWO travel grant for a research visit at the University of Oxford (V431117N). Core funding to the Wellcome Centre for Human Genetics was provided by the Wellcome Trust (award 203141/Z/16/Z). The authors acknowledge the STOP-HCV consortium that was funded by a grant from the Medical Research Council, United Kingdom (MR/K01532X/1). Publisher Copyright: © 2023 by the authors. |
| publishDate |
2023 |
| dc.date.none.fl_str_mv |
2023-12 2023-12-01T00:00:00Z 2024-03-14T23:58:34Z |
| dc.type.status.fl_str_mv |
info:eu-repo/semantics/publishedVersion |
| dc.type.driver.fl_str_mv |
info:eu-repo/semantics/article |
| format |
article |
| status_str |
publishedVersion |
| dc.identifier.uri.fl_str_mv |
http://hdl.handle.net/10362/164969 |
| url |
http://hdl.handle.net/10362/164969 |
| dc.language.iso.fl_str_mv |
eng |
| language |
eng |
| dc.relation.none.fl_str_mv |
1999-4915 PURE: 82961597 https://doi.org/10.3390/v15122391 |
| dc.rights.driver.fl_str_mv |
info:eu-repo/semantics/openAccess |
| eu_rights_str_mv |
openAccess |
| dc.format.none.fl_str_mv |
application/pdf |
| dc.source.none.fl_str_mv |
reponame:Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) instname:Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação instacron:RCAAP |
| instname_str |
Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação |
| instacron_str |
RCAAP |
| institution |
RCAAP |
| reponame_str |
Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) |
| collection |
Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) |
| repository.name.fl_str_mv |
Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) - Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação |
| repository.mail.fl_str_mv |
|
| _version_ |
1799138193352687616 |